>VSE248 (VSE248Q) /CSM/VS/VSE2-B/VSE248Q.Seq.d/
XXXXXXXXXXCCGATCAACAACGTCTTATCTTTGCCGGTAAACAATTTGAAGATGGTCGT
ACTTTANCCGATTTTAACATCCAAAAGGAATCAACCCTCCACTTAGTTTTAAGATTAAGN
GGTGGTATTGAACCATCCCTCGTCATTCTTGCCCGTAAATACAAATGTGACAAAATGATT
TGCAGAAAATGTTATGCTCGTTTACACCCACGTGCTGTTAACTGTCGTAAGAAGAAATGT
GGTCACTCTAACAATTTAAGACCAAAGAAGAAGTTACTTAAATAAATTCTTAAAGAAATT
ACTAAAAAAAGTATACTATTCCTCAAAATAATAAAAAATGTCTTTTATTTTTTTATTTAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

---DQQRLIFAGKQFEDGRTLXDFNIQKESTLHLVLRLXGGIEPSLVILARKYKCDKMIC
RKCYARLHPRAVNCRKKKCGHSNNLRPKKKLLK*ilkeitkksilflkiiknvfyffi*k
kkkkkkkkkkkkk

Frame A:
---rsttsylcr*ti*rwsyfxrf*hpkginpplsfkikxwy*tiprhscp*iqm*qndl
qkmlcsftptcc*ls*eemwsl*qfktkeevt*ins*rny*kkytipqnnkkcllffylk
kkkkkkkkkkkkk


Frame B:
---DQQRLIFAGKQFEDGRTLXDFNIQKESTLHLVLRLXGGIEPSLVILARKYKCDKMIC
RKCYARLHPRAVNCRKKKCGHSNNLRPKKKLLK*ilkeitkksilflkiiknvfyffi*k
kkkkkkkkkkkkk


Frame C:
---innvlslpvnnlkmvvlxpiltskrnqpst*f*d*xvvlnhpssflpvntnvtk*fa
envmlvythvlltvvrrnvvtlti*dqrrsylnkflkkllkkvyyssk**kmsfiflfkk
kkkkkkkkkkkkk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSE248 (VSE248Q) /CSM/VS/VSE2-B/VSE248Q.Seq.d/                        636   0.0
VSI342 (VSI342Q) /CSM/VS/VSI3-B/VSI342Q.Seq.d/                        617   e-176
VSI116 (VSI116Q) /CSM/VS/VSI1-A/VSI116Q.Seq.d/                        617   e-176
VSF279 (VSF279Q) /CSM/VS/VSF2-D/VSF279Q.Seq.d/                        617   e-176
VSA184 (VSA184Q) /CSM/VS/VSA1-D/VSA184Q.Seq.d/                        617   e-176
VHN860 (VHN860Q) /CSM/VH/VHN8-C/VHN860Q.Seq.d/                        617   e-176
FC-BG23 (FC-BG23Q) /CSM/FC/FC-BG/FC-BG23Q.Seq.d/                      617   e-176
VSD607 (VSD607Q) /CSM/VS/VSD6-A/VSD607Q.Seq.d/                        605   e-172
VSF891 (VSF891Q) /CSM/VS/VSF8-D/VSF891Q.Seq.d/                        603   e-172
VHI874 (VHI874Q) /CSM/VH/VHI8-D/VHI874Q.Seq.d/                        581   e-165

                                                               Score     E
Sequences producing significant alignments:                    (bits)  Value  N

X07210|X07210.1 Dictyostelium discoideum mRNA for ubiquitin.     549  e-174  2
M23749|M23749.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUBV45.   549  e-171  2
X04702|X04702.1 Dictyostelium discoideum mRNA for ubiquitin precursor.   412  e-168  3
M23754|M23754.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB2.   131  7e-27  2
M19492|M19492.1 Slime mold (D.discoideum) ubiquitin lambda-229 gene, complete cds.   131  7e-27  2
M23751|M23751.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB18.    94  6e-23  2
M23752|M23752.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB17.    94  8e-23  2
BU828297|BU828297.1 K020P31P Populus apical shoot cDNA library Populus tremula x Populus tremuloides cDNA 5 prime, mRNA sequence.    60  9e-23  4
BE581527|BE581527.1 kq47b05.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to gb:M26880 UBIQUITIN (HUMAN);, mRNA sequence.    62  2e-20  5
BQ515998|BQ515998.1 EST623413 Generation of a set of potato cDNA clones for microarray analyses mixed potato tissues Solanum tuberosum cDNA clone STMIV28 3' end, mRNA sequence.    78  2e-20  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

M23749_1(M23749|pid:none) D.discoideum ubiquitin mRNA, complete ...   169   2e-41
JC5226(JC5226) ubiquitin / ribosomal protein CEP52 - Acropora mi...   158   7e-38
AE014134_744(AE014134|pid:none) Drosophila melanogaster chromoso...   156   2e-37
AF395864_1(AF395864|pid:none) Branchiostoma belcheri ubiquitin m...   155   6e-37
AB036060_1(AB036060|pid:none) Oncorhynchus mykiss mRNA for ubiqu...   155   6e-37
EF070483_1(EF070483|pid:none) Maconellicoccus hirsutus clone WHM...   155   6e-37
AB032025_1(AB032025|pid:none) Canis lupus familiaris mRNA for ub...   155   6e-37
AF348700_1(AF348700|pid:none) Homo sapiens ubiquitin A-52 residu...   155   6e-37
AM259605_1(AM259605|pid:none) Salmo salar partial mRNA for ubiqu...   155   6e-37
EF070591_1(EF070591|pid:none) Maconellicoccus hirsutus clone WHM...   154   7e-37

 psg: 0.49  gvh: 0.59  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.11  mip: 0.00
 nuc: 0.48  erl: 0.00  erm: 0.60  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 68.0 %: nuclear
	 16.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VSE248 is nuc

>VSE248Z.Seq
----------CCGATCAACAACGTCTTATCTTTGCCGGTAAACAATTTGAAGATGGTCGT
ACTTTANCCGATTTTAACATCCAAAAGGAATCAACCCTCCACTTAGTTTTAAGATTAAGN
GGTGGTATTGAACCATCCCTCGTCATTCTTGCCCGTAAATACAAATGTGACAAAATGATT
TGCAGAAAATGTTATGCTCGTTTACACCCACGTGCTGTTAACTGTCGTAAGAAGAAATGT
GGTCACTCTAACAATTTAAGACCAAAGAAGAAGTTACTTAAATAAATTCTTAAAGAAATT
ACTAAAAAAAGTATACTATTCCTCAAAATAATAAAAAATGTCTTTTATTTTTTTATTTAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA